User Tools

Site Tools


jvs:fscan:manual:chapter3:winkeys:roi

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Next revision
Previous revision
jvs:fscan:manual:chapter3:winkeys:roi [2011/03/31 14:49]
127.0.0.1 external edit
jvs:fscan:manual:chapter3:winkeys:roi [2023/02/23 18:43] (current)
Line 53: Line 53:
           path -- linked points in space           path -- linked points in space
           polygon -- closed path (perimeter on surface)           polygon -- closed path (perimeter on surface)
-          slice polygons -- separate path drawn in each slice +          slice polygons -- separate polygon drawn in each slice 
-      10    shell -- pts on perimeter of 3-D region+      10    slice paths -- separate path drawn in each slice
       11    area -- perimeter and all internal points       11    area -- perimeter and all internal points
       12    shell -- perimeter and all internal points       12    shell -- perimeter and all internal points
Line 137: Line 137:
         VAL:  Value to write if (FLG & 4)         VAL:  Value to write if (FLG & 4)
      10h                auto roi for surfs      10h                auto roi for surfs
-     10,1h              surf: expand path to geodesic list +     For surfaces: 
-     10,2h              surf: mark all vertices inside path with parm and color +       10,1h            expand path to geodesic list 
-     10,3h              surf: expand path to include all inside vertices     +       10,2h            mark all vertices inside path with parm and color 
-     10,4h              surf: paint roi color onto vertices +       10,3h            expand path to include all inside vertices     
 +       10,4h            paint roi color onto vertices 
 +     For images: 
 +       10,1,flg,dist h  
 +                        expand path by interpolation 
 +          FLG  1 - reuse same ROI 
 +               2 - interpolate contours for intervening slices  
 +               ? - add node for every voxel DIST step (default)  
 +          DIST   - distance between node steps in mm (default: voxel width) 
 +                 - Flg 2: distance between contours in mm (default: voxel depth) 
 +       10,2,flg,dist,val h 
 +                        sample image perpendicular to path at each node; 
 +                        find edge where image intensity crosses VAL boundary, 
 +                        move node to edge if found; flag nodes where no edge found 
 +          FLG  1 - reuse same ROI (default is create new ROI) 
 +               2 - edge is intensity change >= VAL % 
 +               4 - only look for edge on one side  
 +                   (default is one side, then the other [left then right]) 
 +               8 - swap search directions (look first on right side of path) 
 +                   (default is inward for counter-clockwise path) 
 +              16 - first jump away from search direction then search (assumes 4) 
 +          VAL  edge intensity value (default current Thresh value, or 1 if Thresh==0) 
 +       10,3,flg,dist h clean up nodes in path 
 +          FLG  1 - reuse same ROI (default is create new ROI) 
 +               ? - remove non-edge nodes (after 10,2h cmd) 
 +               2 - remove kinks (where path doubles back on itself) 
 +               4 - remove outliers (where path jumps  
 +               8 - smooth regardless of distance (default: smooth small jumps) 
 +          DIST 
 +       10,5,flg,val,plane h     Generate contour ROI for image mask(s) 
 +               This creates a contour around the border of the image 
 +               region with intensity VAL (each value >0 by default) 
 +               Note: this is inverse of 9h cmd. 
 +          FLG  1 - inside voxels have values >= VAL (default) 
 +               2 - inside voxels have values <= VAL 
 +               3 - edge is intensity drop >= VAL 
 +               4 - edge is intensity increase >= VAL 
 +               5 - edge is intensity drop >= VAL % 
 +               6 - edge is intensity increase >= VAL % 
 +          VAL  edge intensity value (default current Thresh value, or 1 if Thresh==0) 
 +          PLANE is 0,1,2 for which image plane x,y,z to draw contours 
 +               (plane=2, z, by default.
      11h                Sample values in a region (ROI or near cursor)      11h                Sample values in a region (ROI or near cursor)
      'name',11,flg,roinum,dist,thresh h       'name',11,flg,roinum,dist,thresh h 
jvs/fscan/manual/chapter3/winkeys/roi.1301582953.txt.gz · Last modified: 2014/08/04 16:03 (external edit)